Transcript: SAMMSON:1

Basic information

LNCipedia transcript ID: SAMMSON:1 ?
HGNC Gene Symbol: SAMMSON    ?
HGNC Full Gene Name: survival associated mitochondrial melanoma specific oncogenic non-coding RNA
Location (hg19): chr3:70048728-70063018
Strand: +
Class: intergenic
Transcript size: 513 bp
Exons: 4
Sources: Biogazelle lncRNA chip; Broad Institute; Ensembl release 64 - Sep 2011; Gencode v13; Ensembl release 68 - Jul 2012; NONCODE v4; Ensembl release 75 - Feb 2014; Ensembl release 83 - Dec 2015
Alternative transcript names: ENST00000488861; TCONS_00005539; ENST00000488861.1; RP11-460N16.1-002; OTTHUMT00000352920.1; NONHSAT090372; ENST00000488861.5
Alternative gene names: ENSG00000240405; XLOC_002696; linc-GPR27-4; RP11-460N16.1; ENSG00000240405.1; OTTHUMG00000159017.1; ENSG00000240405.5; LINC01212;


RNA sequence:

Structure:

Protein coding potential


Metric Raw result Interpretation
PRIDE reprocessing 2.0 0 non-coding ?
Lee translation initiation sites 0 non-coding ?
Highest peak:0
PhyloCSF score -111.805 non-coding ?
CPAT coding probability 2.71% non-coding ?
Bazzini small ORFs 0 non-coding ?
In stringent set: yes

Locus conservation

Locus conservation?
SAMMSON:1 no no

Secondary structure information

RNAfold image: download
Randfold minimum free energy: -146.81
Randfold P-value: 0.266

Targetting miRNAs

MirTarget2 predictions:
MicroRNAMirTarget2 score ?
hsa-miR-4329 71.85
hsa-let-7f-2-3p 62.77
hsa-miR-515-3p 61.71
hsa-miR-153 61.61
hsa-miR-519e-3p 61.33
hsa-miR-4280 61.11
hsa-miR-1185-2-3p 60.74
hsa-miR-1185-1-3p 60.34
hsa-miR-188-3p 58.75
hsa-miR-942 57.07
hsa-miR-33b-3p 54.70
hsa-miR-502-5p 54.41
hsa-miR-1915-5p 53.97
hsa-miR-665 51.10
hsa-miR-3667-3p 50.00

Available literature

  1. Leucci (2016), Melanoma addiction to the long non-coding RNA SAMMSON., Nature


LNCipedia transcript ID history

LNCipedia version Deprecated transcript ID
1.3 lnc-MITF-1:1
3.1 lnc-MITF-1:1